24th APAN Meeting, Xian, China - August 2007 e-Science on VNGrid Project Tran Van Lang, Do Van Long...

24th APAN Meeting, 24th APAN Meeting, Xian, China - August 2007Xian, China - August 2007

e-Science on e-Science on VNGrid ProjectVNGrid Project

Tran Van Lang, Do Van LongTran Van Lang, Do Van LongMembers of VNGrid ProjectMembers of VNGrid Project

HCM City Institute of Information HCM City Institute of Information Technology (IOIT-HCM, VAST)Technology (IOIT-HCM, VAST)

ContentsContents

VNGrid IntroductionVNGrid Introduction IOIT-HCM GridIOIT-HCM Grid E-Science ActivitiesE-Science Activities Plan for Future e-Science in VNGridPlan for Future e-Science in VNGrid ConclusionConclusion

VNGrid Introduction VNGrid Introduction

IOIT-HCM IntroductionIOIT-HCM Introduction History of Grid in VietnamHistory of Grid in Vietnam Organizations in VNGridOrganizations in VNGrid Goal of VNGrid projectGoal of VNGrid project IOIT-HCM Grid ActivitiesIOIT-HCM Grid Activities

IOIT-HCM IntroductionIOIT-HCM Introduction

Ho Chi Minh City Institute of Ho Chi Minh City Institute of Information Technology (IOIT-Information Technology (IOIT-HCM)HCM)

VIETNAMESE ACADEMY OF SCIENCE AND VIETNAMESE ACADEMY OF SCIENCE AND TECHNOLOGY (VAST)TECHNOLOGY (VAST)

History of Grid in VietnamHistory of Grid in Vietnam

2003 2004 20052001-2002

Conference on HPC and Grid Computing, in HCM City, held by Ministry of Science

and Technology

The Centers and systems for HPC were

founded

IOIT-HCM Grid Project

HCM City UT Grid Project

BK Grid Group,

Hanoi UT

Grid Group of HCM City College Natural

Sciences

BioGrid, IOIT-HCM

2006-2007

IOIT-HCM connect to

Pragma

VNGrid Project

66

Five Universities and Institutes Five Universities and Institutes were collected to lead and were collected to lead and execute VNGrid project:execute VNGrid project:

1.1. Vietnamese Institute of Vietnamese Institute of Information Technology Information Technology (IOIT, VAST)(IOIT, VAST)

2.2. Hanoi University of Hanoi University of Technology (HUT) Technology (HUT)

3.3. Vietnamese National Vietnamese National University in Hanoi (VNU – University in Hanoi (VNU – Hanoi)Hanoi)

4.4. Vietnamese Military Vietnamese Military Technical Academy (VMTA)Technical Academy (VMTA)

5.5. HCM City Institute of HCM City Institute of Information TechnologyInformation Technology(IOIT-HCM, VAST) (IOIT-HCM, VAST)

Organizations in VNGridOrganizations in VNGrid

Goals of VNGrid projectGoals of VNGrid project

1.1. Establishing the Grid infrastructure in Vietnam:Establishing the Grid infrastructure in Vietnam: Be connected by five institutions Be connected by five institutions Connecting to other Grid systemsConnecting to other Grid systems

2.2. Studying to deploy the middleware: Studying to deploy the middleware: gLite, GlobusgLite, Globus,… ,… 3.3. Building the Grid-based, e-Science ApplicationsBuilding the Grid-based, e-Science Applications: :

Bioinformatics, Meteorology, Virtual Reality, Bioinformatics, Meteorology, Virtual Reality, Cryptography,…Cryptography,… Other scientific applications on Grid system will be Other scientific applications on Grid system will be

encouraged to build and apply to VNGridencouraged to build and apply to VNGrid

Create the environment for the collaborating Create the environment for the collaborating and sharing resources for Science and Education and sharing resources for Science and Education

Make Grid more easy to use.Make Grid more easy to use.

IOIT-HCM Grid ActivitiesIOIT-HCM Grid Activities

PHÂN VIỆN CÔNG NGHỆ PHÂN VIỆN CÔNG NGHỆ THÔNG TIN TẠI TP. HỒ CHÍ THÔNG TIN TẠI TP. HỒ CHÍ

MINH (IOIT-HCM)MINH (IOIT-HCM) 99

1313

Applications and Middleware Applications and Middleware in Pragma testbedin Pragma testbed

http://goc.pragma-grid.net/applications/default.html

Real science applications pair and drive Real science applications pair and drive middleware developmentmiddleware development

Achieve long-run and scientific resultsAchieve long-run and scientific results Open to applications of all scientific disciplinesOpen to applications of all scientific disciplines

Climate simulationClimate simulation Savannah/Nimrod (MU, Australia)Savannah/Nimrod (MU, Australia) MM5/Mpich-Gx (CICESE, Mexico; KISTI, MM5/Mpich-Gx (CICESE, Mexico; KISTI,

Korea)Korea) Quantum-mechanics, quantum-chemistry:Quantum-mechanics, quantum-chemistry:

TDDFT, QM-MD, FMO/Ninf-G (AIST, Japan)TDDFT, QM-MD, FMO/Ninf-G (AIST, Japan) GenomicsGenomics

iGAP/Gfarm/CSF (UCSD, USA; AIST, Japan; iGAP/Gfarm/CSF (UCSD, USA; AIST, Japan; JLU, China)JLU, China)

HPM: genomics (IOIT-HCM, Vietnam)HPM: genomics (IOIT-HCM, Vietnam) mpiBlast/Mpich-G2 (ASGC, Taiwan)mpiBlast/Mpich-G2 (ASGC, Taiwan)

Organic chemistryOrganic chemistry Gamess-APBS/Nimrod (UZurich, Gamess-APBS/Nimrod (UZurich,

Switzerland)Switzerland) Molecular simulationMolecular simulation

Siesta/Nimrod (UZurich, Switzerland; MU, Siesta/Nimrod (UZurich, Switzerland; MU, Australia)Australia)

Amber/Rsh ( USM, Malaysia)Amber/Rsh ( USM, Malaysia) Computer ScienceComputer Science

Load Balancer (IOIT-HCM, Vietnam)Load Balancer (IOIT-HCM, Vietnam) GriddLeS (MU, Australia)GriddLeS (MU, Australia)

2 applications from Vietnam2 applications from Vietnam

http://goc.pragma-grid.net/applications/default.html

IOIT-HCM GridIOIT-HCM Grid

Grid membersGrid members Infrastructure of IOIT-HCM Grid Infrastructure of IOIT-HCM Grid

systemsystem Network architecture of Grid System Network architecture of Grid System

connect to KISTI, PRAGMA and VASTconnect to KISTI, PRAGMA and VAST Grid PortalGrid Portal

IOIT-HCM Grid MembersIOIT-HCM Grid Members



Infrastructure of IOIT-HCM Grid SystemInfrastructure of IOIT-HCM Grid System

Ethernet – 1 GbpsEthernet –10 Mbps

Ethernet 1 Gbps

Internet

172.25.100.2 172.25.100.3 172.25.100.5

172.25.100.1

172.25.101.2 172.25.101.3

172.25.101.1

172.25.97.28203.162.99.117

172.25.97.30203.162.99.98

172.25.98.118203.162.99.118

172.25.97.10203.162.99.116

biogrid.ioit-hcm.ac.vn bio.ioit-hcm.ac.vn

moon.ioit-hcm.ac.vn

Head Node (Condor)

Head Node(Condor)

Grid Portal Database

Compute Node Compute Node

CA

Ethernet – 100 Mbps

Head NodeCA (SGE)

172.25.97.29

Compute Node

172.25.102.2 172.25.102.3

172.25.102.4

172.25.102.5

172.25.102.1

venus.ioit-hcm.ac.vn

IOIT-HCM LAN



Network architecture of Grid System Network architecture of Grid System connect to KISTI, PRAGMA and VASTconnect to KISTI, PRAGMA and VAST

Internet

Compute Nodes

Ethernet

PBS

Ethernet

SGE

proliant.vast-hcm.ac.vn

198.202.88.52

150.183.249.14

rocks-52.sdsc.edu

Compute Nodes

Ethernet

Ethernet

jupiter.gridcenter.or.kr

210.86.238.85

SGE

IOIT-HCM Grid

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IOIT-HCM Grid PortalIOIT-HCM Grid Portal

Our Grid Portal based on Our Grid Portal based on opensource packages:opensource packages: Globus Toolkit 4 Globus Toolkit 4 Java CoGJava CoG Jetspeed PortalJetspeed Portal Tomcat Tomcat Jboss Jboss PostgresqlPostgresql Condor GCondor G GridPort4GridPort4 GridSphere Framework with GridSphere Framework with

JSR168-compatible Portlet JSR168-compatible Portlet ContainerContainer

E-Science Activities in IOIT-E-Science Activities in IOIT-HCMHCM

Grid and BioScience – BioGrid Portal Grid and BioScience – BioGrid Portal AccessGrid deploymentAccessGrid deployment Telemedicine Telemedicine

Grid and BioScienceGrid and BioScience Gird Portal Gird Portal

Account and AuthenticationAccount and Authentication GPIR - Grid Portals Information RepositoryGPIR - Grid Portals Information Repository File ManagementFile Management Job SubmissionJob Submission Job SequenceJob Sequence GRAM JobGRAM Job Condor Job SubmissionCondor Job Submission

Building Bioinformatics tools with Grid Technology apply on Grid Building Bioinformatics tools with Grid Technology apply on Grid Portal: Portal: Phylogenetic TreePhylogenetic Tree BlastBlast Motif findingMotif finding Protein Structure PredictionProtein Structure Prediction ……

Grid PortalGrid Portal

Gird computing apply for generating the Phylogenetic Tree

1

2

3

4

5

3

2

Align a sequence to a profile

Align a profile to a profile

Align a sequence to a sequence

11

2

3

4

5

3

2

Align a sequence to a profile

Align a profile to a profile

Align a sequence to a sequence

1

IOIT-HCM Grid Portal - Blast deploying

Motif findingMotif finding Programming in MPI-2 apply on IOIT-HCM Grid Sys

tem

Protein Structure predictionProtein Structure prediction Programming in MPI-2 with Molecular Dynamic (MD)

Algorithm

http://gridportal.ioit-hcm.ac.vn:8080/gridsphere/

http://gridportal.ioit-hcm.ac.vn:8080/gridsphere/

Access Grid deploymentAccess Grid deployment

Access Grid for Access Grid for collaboration the collaboration the multimedia data multimedia data ((IOIT-HCMIOIT-HCM):):Support ting to the Support ting to the Conference on IT and Conference on IT and Communication in Communication in Haiphong, Vietnam Haiphong, Vietnam (10/2005)(10/2005)

Meeting Room 1 2nd Floor – Block 1

Meeting Room 32nd Floor – Block 2

Meeting Room 21st Floor – Block 2

Center Room1st Floor – Block 1

TelemedicineTelemedicine

Telemedicine Conference on 05/05/05 Telemedicine Conference on 05/05/05 Hospital of Medical (HCM) vs. VietDuc Hospital (Ha Hospital of Medical (HCM) vs. VietDuc Hospital (Ha

Noi)Noi)

Conference between BenTre Province Leaders with University of Medical (HCM)Conference between BenTre Province Leaders with University of Medical (HCM)Deploying Telemedicine with AccessGrid Technology from IOIT-HCMDeploying Telemedicine with AccessGrid Technology from IOIT-HCM

Telemedicine between Nhi Dong 1 Hospital (HCM) Telemedicine between Nhi Dong 1 Hospital (HCM)

with Nguyen Dinh Chieu (Ben Tre Province)with Nguyen Dinh Chieu (Ben Tre Province)Deploying Telemedicine with Video Conferencing Technology from IOIT-HCMDeploying Telemedicine with Video Conferencing Technology from IOIT-HCM

Future E-Science deployment Future E-Science deployment and Other Grid applies on and Other Grid applies on

VNGridVNGrid Applying the HPC and Grid Applying the HPC and Grid

Computing for climate Computing for climate forecast (forecast (Hanoi UTHanoi UT and and Center for HPC, Hanoi Center for HPC, Hanoi UNSUNS))

Using MM5 modelUsing MM5 model

Simulating some Simulating some biomedical problems biomedical problems ((Hanoi College of Hanoi College of TechnologyTechnology))

Setup the e-Learning system for Setup the e-Learning system for training on Girdtraining on Gird

Eleanring system of IOIT-HCM deploy in Bamako, Mali, AficaEleanring system of IOIT-HCM deploy in Bamako, Mali, Afica

Research for deploy System in South Provinces of Research for deploy System in South Provinces of VietnamVietnam

Connecting from HCM to Can Tho Provinces

Connecting from HCM to An Giang Province

BirdFlu ObserverBirdFlu Observer

Vietnam Digital Map deployingVietnam Digital Map deploying

Join to the Grid CommunitiesJoin to the Grid Communities

EGEE User ForumEGEE User Forum AsiaGrid - SingaporeAsiaGrid - Singapore

Join to the Grid Communities Join to the Grid Communities (cont.)(cont.)

GeoGrid, Pragma 12: Thailand (03/2007)GeoGrid, Pragma 12: Thailand (03/2007) ISGC 07: Taipei (03/2007)ISGC 07: Taipei (03/2007) EGEE User Forum: Manchester (05/2007)EGEE User Forum: Manchester (05/2007) AsiaGrid: Singapore (06/2007)AsiaGrid: Singapore (06/2007) APAN Meeting: China (08/2007)APAN Meeting: China (08/2007) EGEE Meeting: Pudapest (10/2007)EGEE Meeting: Pudapest (10/2007) Do Son School: Vietnam (11/2007)Do Son School: Vietnam (11/2007) ……

Future step: Setup Grid on VinaRen Future step: Setup Grid on VinaRen NetworkNetwork

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ConclusionConclusion We are studying Grid Technology and try to We are studying Grid Technology and try to

apply to Science and Education. apply to Science and Education. Will invest more for the networking and Will invest more for the networking and

infrastructure infrastructure Need to connect to the other Grid System Need to connect to the other Grid System

for expand the collaboration.for expand the collaboration.

Our next step is connecting to EGEE Asia Our next step is connecting to EGEE Asia Federation (EAF) to receive the operations Federation (EAF) to receive the operations technology and experience for deploying e-technology and experience for deploying e-Science on our Grid Resource Centers.Science on our Grid Resource Centers.

Thank for your AttentionThank for your Attention

24th APAN Meeting, Xian, China - August 2007 e-Science on VNGrid Project Tran Van Lang, Do Van Long...

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